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Aliases for MINDY2 Gene

Aliases for MINDY2 Gene

  • MINDY Lysine 48 Deubiquitinase 2 2 3 5
  • Family With Sequence Similarity 63 Member B 2 3
  • Deubiquitinating Enzyme MINDY-2 3 4
  • MINDY Deubiquitinase 2 2 3
  • Protein FAM63B 3 4
  • FAM63B 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase MINDY-2 3
  • Family With Sequence Similarity 63, Member B 2
  • EC 3.4.19.12 4
  • KIAA1164 4

External Ids for MINDY2 Gene

Previous HGNC Symbols for MINDY2 Gene

  • FAM63B

Summaries for MINDY2 Gene

GeneCards Summary for MINDY2 Gene

MINDY2 (MINDY Lysine 48 Deubiquitinase 2) is a Protein Coding gene. An important paralog of this gene is MINDY1.

UniProtKB/Swiss-Prot for MINDY2 Gene

  • Hydrolase that can remove Lys-48-linked conjugated ubiquitin from proteins (PubMed:27292798). Binds to polyubiquitin chains of different linkage types, including Lys-6, Lys-11, Lys-29, Lys-33, Lys-48 and Lys-63 (PubMed:28082312). May play a regulatory role at the level of protein turnover (PubMed:27292798).

Additional gene information for MINDY2 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MINDY2 Gene

Genomics for MINDY2 Gene

GeneHancer (GH) Regulatory Elements for MINDY2 Gene

Promoters and enhancers for MINDY2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15J058769 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 661.3 +0.7 696 3.8 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 YY1 LOC101928725 MINDY2 SLTM RNF111 ADAM10 BNIP2 PIGHP1 ENSG00000259402
GH15J058864 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE 16.8 +94.6 94555 3.3 PKNOX1 ATF1 FOXA2 ARNT ARID4B SIN3A DMAP1 BRCA1 ZNF48 ATF7 ENSG00000259353 RNF111 ZNF444P1 MINDY2 SLTM ENSG00000225798 LOC101928725 SNORD3P1 ADAM10 RPL21P14
GH15J058465 Enhancer 1.4 Ensembl ENCODE dbSUPER 14.8 -301.1 -301050 9.2 PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 YY1 FOS DEK JUNB ADAM10 LIPC MINDY2 SNORD3P1 LOC101928725 ENSG00000277790 LIPC-AS1 ALDH1A2
GH15J058457 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.6 -312.1 -312113 4 HDGF IRF4 YY1 ATF7 FOS RUNX3 RXRA JUNB REST PPARG LIPC ADAM10 AQP9 LOC101928725 MINDY2 SNORD3P1 SLTM ENSG00000277790 LIPC-AS1 ALDH1A2
GH15J059586 Enhancer 0.8 ENCODE 21.1 +816.4 816386 1.3 ZNF335 ZNF366 SCRT2 FOS YY2 CEBPB ZNF662 ZNF843 ZNF148 ATF4 ICE2 SLTM MINDY2 RPS3AP6 GC15M059584 GCNT3 GC15M059575
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around MINDY2 on UCSC Golden Path with GeneCards custom track

Genomic Locations for MINDY2 Gene

Genomic Locations for MINDY2 Gene
chr15:58,771,192-58,861,900
(GRCh38/hg38)
Size:
90,709 bases
Orientation:
Plus strand
chr15:59,063,391-59,154,099
(GRCh37/hg19)
Size:
90,709 bases
Orientation:
Plus strand

Genomic View for MINDY2 Gene

Genes around MINDY2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MINDY2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MINDY2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MINDY2 Gene

Proteins for MINDY2 Gene

  • Protein details for MINDY2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NBR6-MINY2_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase MINDY-2
    Protein Accession:
    Q8NBR6
    Secondary Accessions:
    • B2RTT8
    • Q9ULQ6

    Protein attributes for MINDY2 Gene

    Size:
    621 amino acids
    Molecular mass:
    67106 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=EAW77545.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for MINDY2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for MINDY2 Gene

Post-translational modifications for MINDY2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for MINDY2 Gene

Domains & Families for MINDY2 Gene

Gene Families for MINDY2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for MINDY2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for MINDY2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8NBR6

UniProtKB/Swiss-Prot:

MINY2_HUMAN :
  • Belongs to the peptidase MINDY family. FAM63 subfamily.
Family:
  • Belongs to the peptidase MINDY family. FAM63 subfamily.
genes like me logo Genes that share domains with MINDY2: view

Function for MINDY2 Gene

Molecular function for MINDY2 Gene

UniProtKB/Swiss-Prot Function:
Hydrolase that can remove Lys-48-linked conjugated ubiquitin from proteins (PubMed:27292798). Binds to polyubiquitin chains of different linkage types, including Lys-6, Lys-11, Lys-29, Lys-33, Lys-48 and Lys-63 (PubMed:28082312). May play a regulatory role at the level of protein turnover (PubMed:27292798).
UniProtKB/Swiss-Prot CatalyticActivity:
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Enzyme Numbers (IUBMB) for MINDY2 Gene

Phenotypes From GWAS Catalog for MINDY2 Gene

Gene Ontology (GO) - Molecular Function for MINDY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IEA --
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0016807 cysteine-type carboxypeptidase activity IDA 27292798
genes like me logo Genes that share ontologies with MINDY2: view
genes like me logo Genes that share phenotypes with MINDY2: view

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for MINDY2 Gene

Localization for MINDY2 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for MINDY2 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for MINDY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005829 cytosol IBA --
GO:0071944 cell periphery IBA --
genes like me logo Genes that share ontologies with MINDY2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for MINDY2 Gene

Pathways & Interactions for MINDY2 Gene

SuperPathways for MINDY2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for MINDY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0008150 biological_process ND --
GO:0071108 protein K48-linked deubiquitination IEA --
genes like me logo Genes that share ontologies with MINDY2: view

No data available for Pathways by source and SIGNOR curated interactions for MINDY2 Gene

Drugs & Compounds for MINDY2 Gene

No Compound Related Data Available

Transcripts for MINDY2 Gene

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for MINDY2 Gene

No ASD Table

Relevant External Links for MINDY2 Gene

GeneLoc Exon Structure for
MINDY2
ECgene alternative splicing isoforms for
MINDY2

Expression for MINDY2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of MINDY2 Gene:

MINDY2

Evidence on tissue expression from TISSUES for MINDY2 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with MINDY2: view

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for MINDY2 Gene

Orthologs for MINDY2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for MINDY2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FAM63B 34 33
  • 99.79 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia FAM63B 34
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia FAM63B 34 33
  • 92.35 (n)
OneToOne
cow
(Bos Taurus)
Mammalia FAM63B 34 33
  • 91.41 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Fam63b 34 33
  • 84.39 (n)
OneToOne
Mindy2 16
rat
(Rattus norvegicus)
Mammalia Fam63b 33
  • 83.61 (n)
oppossum
(Monodelphis domestica)
Mammalia FAM63B 34
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves FAM63B 34 33
  • 78.27 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia FAM63B 34
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia fam63b 33
  • 73.2 (n)
zebrafish
(Danio rerio)
Actinopterygii fam63b 34
  • 59 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea Y55F3AM.9 34 33
  • 49.04 (n)
OneToMany
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E19273g 33
  • 47.57 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YGL082W 33
  • 47.49 (n)
-- 34
  • 29 (a)
ManyToMany
-- 34
  • 25 (a)
ManyToMany
-- 36
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFL071C 33
  • 45.98 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1538 34
  • 52 (a)
OneToMany
Species where no ortholog for MINDY2 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for MINDY2 Gene

ENSEMBL:
Gene Tree for MINDY2 (if available)
TreeFam:
Gene Tree for MINDY2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for MINDY2: view image

Paralogs for MINDY2 Gene

Paralogs for MINDY2 Gene

genes like me logo Genes that share paralogs with MINDY2: view

Variants for MINDY2 Gene

Sequence variations from dbSNP and Humsavar for MINDY2 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000045122 -- 58,794,507(+) T/C intron_variant
rs1000135771 -- 58,825,526(+) A/G intron_variant
rs1000140295 -- 58,817,307(+) G/A intron_variant
rs1000150256 -- 58,849,145(+) A/G genic_downstream_transcript_variant, intron_variant
rs1000167084 -- 58,825,869(+) G/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for MINDY2 Gene

Variant ID Type Subtype PubMed ID
esv2656587 CNV deletion 23128226
esv2669121 CNV deletion 23128226
esv34110 CNV loss 18971310
esv3636631 CNV loss 21293372
esv3636632 CNV loss 21293372
esv3636633 CNV loss 21293372
nsv1035640 CNV gain 25217958
nsv527307 CNV gain 19592680
nsv7266 OTHER inversion 18451855
nsv977719 CNV duplication 23825009

Variation tolerance for MINDY2 Gene

Residual Variation Intolerance Score: 54.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.76; 47.07% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MINDY2 Gene

Human Gene Mutation Database (HGMD)
MINDY2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
MINDY2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MINDY2 Gene

Disorders for MINDY2 Gene

No disorders were found for MINDY2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MINDY2 Gene

Publications for MINDY2 Gene

  1. Characterization of cDNA clones selected by the GeneMark analysis from size-fractionated cDNA libraries from human brain. (PMID: 10574461) Hirosawa M … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1999) 2 3 4 58
  2. A single MIU motif of MINDY-1 recognizes K48-linked polyubiquitin chains. (PMID: 28082312) Kristariyanto YA … Kulathu Y (EMBO reports 2017) 3 4 58
  3. MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes. (PMID: 27292798) Abdul Rehman SA … Kulathu Y (Molecular cell 2016) 3 4 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for MINDY2 Gene

Sources for MINDY2 Gene

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